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1. 3k-SNP-paper 3k-SNP-paper Public

   Custom code for 3,000 rice genomes paper

   R 8 2

2. gatk4-var-calling-pipeline gatk4-var-calling-pipeline Public

   A pipeline for variant calling based on best practices for GATK 4.0

   Shell 3

3. gemma-gwas-scripts gemma-gwas-scripts Public

   A collection of scripts to aid mixed linear model based GWAS with GEMMA (https://github.com/genetics-statistics/GEMMA)

   R 6 3

4. haplotool-docs haplotool-docs Public

   Documentation for GOBii HaploTool

5. Q-aggr Q-aggr Public

   R 1

6. varcall-snakemake-test varcall-snakemake-test Public

   Using snakemake-workflows/dna-seq-gatk-variant-calling as a template

   Python